sequana/rnaseq

Issues

• plot feature counts does not appear

  #45 opened 5 months ago by cokelaer
  0

• Improve output table csv file per comparison

  #23 opened 2 years ago by khourhin
  1

• change aligner -> aligner_choice to be sequanix comptabible

  #40 opened a year ago by cokelaer
  0

• rRNA is set to empty string (regression)

  #42 opened a year ago by cokelaer
  0

• consider splitting the HTML page into 1 page per comparison

  #43 opened a year ago by cokelaer
  0

• config file not configure properly for sequanix

  #18 opened a year ago by cokelaer
  1

• Document the sequana rnadiff standalone including the rtools container

  #36 opened a year ago by cokelaer
  0

• remove upset plot if only one comparison is available

  #20 opened a year ago by cokelaer
  1

• fastp multiqc shows only 1 sample

  #33 opened a year ago by cokelaer
  1

• plot showing most expressed genes

  #34 opened a year ago by cokelaer
  1

• pipeline does not work if fastp rule is deactivate

  #15 opened a year ago by ddesvillechabrol
  1

• add option to not perform rRNA

  #31 opened a year ago by cokelaer
  0

• improvements rnaseq pipeline

  #2 opened 5 years ago by cokelaer
  0

• rnadiff directory should be cleaned from deset previous results when rerun with --force

  #21 opened 2 years ago by cokelaer
  1

• table in HTML reports limited to 20 comparisons

  #26 opened 2 years ago by cokelaer
  1

• ashr required in new analysis. Need a new singularity

  #28 opened 2 years ago by cokelaer
  1

• gene HTML tables are sometimes not appearing

  #14 opened 3 years ago by khourhin
  1

• Error in rnaseq.rules

  #12 opened 3 years ago by PierreL-B
  2

• error in bowtie2_index.rules

  #11 opened 4 years ago by PierreL-B
  1

• simplify start_mapping rule

  #9 opened 4 years ago by cokelaer
  1

• multiple feature counts

  #10 opened 4 years ago by cokelaer
  1

• seg fault star mapping

  #8 opened 4 years ago by cokelaer
  1

• Error in indexing : do not create SAIndex output file

  #7 opened 4 years ago by PierreL-B
  2

• large memory required in onsuccess when creating files from GFF file

  #6 opened 4 years ago by cokelaer
  1

• tolerance argument in get_most_probable_strand_consensus() function

  #5 opened 4 years ago by PierreL-B
  1

• pre-fill parameters related to indexing

  #4 opened 4 years ago by cokelaer
  1

• explanation of the naming convention in the config and pipeline when using bowtie2_mapping rule

  #3 opened 5 years ago by cokelaer
  1

• simplify pipeline

  #1 opened 5 years ago by cokelaer
  1